The difference between cellulolytic ‘culturomes’ and microbiomes inhabiting two contrasting soil types

Abstract

High-throughput 16S rRNA sequencing was performed to compare the microbiomes inhabiting two contrasting soil types—sod-podzolic soil and chernozem—and the corresponding culturome communities of potentially cellulolytic bacteria cultured on standard Hutchinson media. For each soil type, soil-specific microorganisms have been identified: for sod-podzolic soil—Acidothermus, Devosia, Phenylobacterium and Tumebacillus, and for chernozem soil—Sphingomonas, Bacillus and Blastococcus. The dynamics of differences between soil types for bulk soil samples and culturomes varied depending on the taxonomic level of the corresponding phylotypes. At high taxonomic levels, the number of common taxa between soil types increased more slowly for bulk soil than for culturome. Differences between soil-specific phylotypes were detected in bulk soil at a low taxonomic level (genus, species). A total of 13 phylotypes were represented both in soil and in culturome. No relationship was shown between the abundance of these phylotypes in soil and culturome.